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One of Fiji's principal aims is to make the installation of ImageJ, Java, Java 3D, the plugins, and further convenient components, as easy as possible. As a consequence, Fiji enjoys more and more active users.
Pre-trained workflows can be executed directly from ImageJ/Fiji using the ilastik-ImageJ plugin. [4] Pre-trained ilastik Pixel Classification workflows can be run directly in Python with the ilastik Python package, [5] which is available via conda.
ImageJ is a Java-based image processing program developed at the National Institutes of Health and the Laboratory for Optical and Computational Instrumentation (LOCI, University of Wisconsin). [ 2 ] [ 3 ] Its first version, ImageJ 1.x, is developed in the public domain , while ImageJ2 and the related projects SciJava , ImgLib2 , and SCIFIO are ...
Anaconda is an open source [9] [10] data science and artificial intelligence distribution platform for Python and R programming languages.Developed by Anaconda, Inc., [11] an American company [1] founded in 2012, [11] the platform is used to develop and manage data science and AI projects. [9]
CellProfiler interfaces with the high-performance scientific libraries NumPy and SciPy for many mathematical operations, the Open Microscopy Environment [11] Consortium’s Bio-Formats library for reading more than 100 image file formats, ImageJ for use of plugins and macros, and ilastik for pixel-based classification. [12]
pip (also known by Python 3's alias pip3) is a package-management system written in Python and is used to install and manage software packages. [4] The Python Software Foundation recommends using pip for installing Python applications and its dependencies during deployment. [5]
There are several packages that make bioimage informatics methods available through a graphical user interface such as ImageJ, FIJI, CellProfiler, chunkflow or Icy. Visualization and analysis platforms such as Vaa3D have appeared in recent years and have been used in both large scale projects especially for neuroscience and desktop applications.
This is a list of free and open-source software (FOSS) packages, computer software licensed under free software licenses and open-source licenses.Software that fits the Free Software Definition may be more appropriately called free software; the GNU project in particular objects to their works being referred to as open-source. [1]